Protocol for single-cell ATAC sequencing using combinatorial indexing in mouse lung adenocarcinoma
Single-cell ATAC sequencing using combinatorial indexing (sciATAC-seq) enables the identification of chromatin accessibility profiles at single-cell resolution with a dual-barcoding approach during transposition and library construction. Unlike commercial droplet-based approaches, sciATAC-seq is a c...
| Main Authors: | , , , , , |
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| Other Authors: | |
| Format: | Article |
| Language: | English |
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Elsevier BV
2022
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| Online Access: | https://hdl.handle.net/1721.1/146819 |
| _version_ | 1826197183291981824 |
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| author | Del Priore, Isabella Ma, Sai Strecker, Jonathan Jacks, Tyler LaFave, Lindsay M Buenrostro, Jason D |
| author2 | Massachusetts Institute of Technology. Department of Biology |
| author_facet | Massachusetts Institute of Technology. Department of Biology Del Priore, Isabella Ma, Sai Strecker, Jonathan Jacks, Tyler LaFave, Lindsay M Buenrostro, Jason D |
| author_sort | Del Priore, Isabella |
| collection | MIT |
| description | Single-cell ATAC sequencing using combinatorial indexing (sciATAC-seq) enables the identification of chromatin accessibility profiles at single-cell resolution with a dual-barcoding approach during transposition and library construction. Unlike commercial droplet-based approaches, sciATAC-seq is a cost-effective, extensible strategy that permits flexibility in the experimental scale via multiplexed barcoding across samples or perturbations. In contrast, droplet-based approaches have higher cell recovery and may be advantageous when cell input is limited. The step-by-step sciATAC-seq protocol described here is amenable to diverse cell types and fixed samples. For complete details on the use and execution of this protocol, please refer to LaFave et al. (2020). |
| first_indexed | 2024-09-23T10:43:45Z |
| format | Article |
| id | mit-1721.1/146819 |
| institution | Massachusetts Institute of Technology |
| language | English |
| last_indexed | 2024-09-23T10:43:45Z |
| publishDate | 2022 |
| publisher | Elsevier BV |
| record_format | dspace |
| spelling | mit-1721.1/1468192022-12-10T03:32:41Z Protocol for single-cell ATAC sequencing using combinatorial indexing in mouse lung adenocarcinoma Del Priore, Isabella Ma, Sai Strecker, Jonathan Jacks, Tyler LaFave, Lindsay M Buenrostro, Jason D Massachusetts Institute of Technology. Department of Biology Single-cell ATAC sequencing using combinatorial indexing (sciATAC-seq) enables the identification of chromatin accessibility profiles at single-cell resolution with a dual-barcoding approach during transposition and library construction. Unlike commercial droplet-based approaches, sciATAC-seq is a cost-effective, extensible strategy that permits flexibility in the experimental scale via multiplexed barcoding across samples or perturbations. In contrast, droplet-based approaches have higher cell recovery and may be advantageous when cell input is limited. The step-by-step sciATAC-seq protocol described here is amenable to diverse cell types and fixed samples. For complete details on the use and execution of this protocol, please refer to LaFave et al. (2020). 2022-12-09T18:36:56Z 2022-12-09T18:36:56Z 2021 2022-12-09T18:30:55Z Article http://purl.org/eprint/type/JournalArticle https://hdl.handle.net/1721.1/146819 Del Priore, Isabella, Ma, Sai, Strecker, Jonathan, Jacks, Tyler, LaFave, Lindsay M et al. 2021. "Protocol for single-cell ATAC sequencing using combinatorial indexing in mouse lung adenocarcinoma." STAR Protocols, 2 (2). en 10.1016/J.XPRO.2021.100583 STAR Protocols Creative Commons Attribution 4.0 International license https://creativecommons.org/licenses/by/4.0/ application/pdf Elsevier BV Elsevier |
| spellingShingle | Del Priore, Isabella Ma, Sai Strecker, Jonathan Jacks, Tyler LaFave, Lindsay M Buenrostro, Jason D Protocol for single-cell ATAC sequencing using combinatorial indexing in mouse lung adenocarcinoma |
| title | Protocol for single-cell ATAC sequencing using combinatorial indexing in mouse lung adenocarcinoma |
| title_full | Protocol for single-cell ATAC sequencing using combinatorial indexing in mouse lung adenocarcinoma |
| title_fullStr | Protocol for single-cell ATAC sequencing using combinatorial indexing in mouse lung adenocarcinoma |
| title_full_unstemmed | Protocol for single-cell ATAC sequencing using combinatorial indexing in mouse lung adenocarcinoma |
| title_short | Protocol for single-cell ATAC sequencing using combinatorial indexing in mouse lung adenocarcinoma |
| title_sort | protocol for single cell atac sequencing using combinatorial indexing in mouse lung adenocarcinoma |
| url | https://hdl.handle.net/1721.1/146819 |
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